q33_RAM stability-3
Prashant Kalvapalle
21 June, 2022
Goal of the analysis
Analyzing qPCR data. Using Cq values from quantstudio application. Convert to absolute quantification using standard curves
## [1] "Using Standard curve : Std30"Cq Plots
## Warning: Removed 9 rows containing missing values (geom_point).
## Warning: Removed 9 rows containing missing values (geom_point).
Copies plot
## Warning: Removed 9 rows containing missing values (geom_point).
## Warning: Removed 11 rows containing non-finite values (stat_boxplot).
## Removed 9 rows containing missing values (geom_point).
## Warning: Removed 11 rows containing non-finite values (stat_boxplot).
## Removed 9 rows containing missing values (geom_point).
## Warning: Removed 11 rows containing non-finite values (stat_boxplot).
## Removed 9 rows containing missing values (geom_point).
## Warning: Removed 11 rows containing non-finite values (stat_boxplot).
## Removed 9 rows containing missing values (geom_point).## Warning: Removed 11 rows containing non-finite values (stat_boxplot).## Warning in is.na(ticktext): is.na() applied to non-(list or vector) of type 'expression'
## Warning in is.na(ticktext): is.na() applied to non-(list or vector) of type 'expression'
## Warning in is.na(ticktext): is.na() applied to non-(list or vector) of type 'expression'## Warning: Removed 11 rows containing non-finite values (stat_boxplot).## Warning in is.na(ticktext): is.na() applied to non-(list or vector) of type 'expression'
## Warning in is.na(ticktext): is.na() applied to non-(list or vector) of type 'expression'
## Warning in is.na(ticktext): is.na() applied to non-(list or vector) of type 'expression'
Melting temp
Tm1
Largest melting temperature peak
All Tm peaks
All peaks of melting temperature
Data output
| Target_name | assay_var.label | mean_Copies.per.ul.template | Sample_category |
|---|---|---|---|
| 16s | 328/0 | 4.21e+08 | degradation |
| 16s | 328/10 | 4.46e+08 | degradation |
| 16s | 328/30 | 4.22e+08 | degradation |
| 16s | 328/60 | 4.28e+08 | degradation |
| 16s | 328/180 | 3.74e+08 | degradation |
| 16s | 315/0 | 3.21e+08 | degradation |
| 16s | 315/10 | 4.91e+08 | degradation |
| 16s | 315/30 | 4.13e+08 | degradation |
| 16s | 315/60 | 3.24e+08 | degradation |
| 16s | 315/180 | 2.42e+08 | degradation |
| 16s | ntc | 2.02e+02 | Stability |
| gfpbarcode | 328/0 | 1.74e+07 | degradation |
| gfpbarcode | 328/10 | 6.77e+05 | degradation |
| gfpbarcode | 328/30 | 2.28e+05 | degradation |
| gfpbarcode | 328/60 | 2.17e+05 | degradation |
| gfpbarcode | 328/180 | 3.45e+05 | degradation |
| gfpbarcode | 315/0 | 7.56e+07 | degradation |
| gfpbarcode | 315/10 | 1.13e+07 | degradation |
| gfpbarcode | 315/30 | 2.44e+06 | degradation |
| gfpbarcode | 315/60 | 1.18e+05 | degradation |
| gfpbarcode | 315/180 | 1.10e+04 | degradation |
| gfpbarcode | ntc | NA | Stability |
| U64 | 328/0 | 1.11e+03 | degradation |
| U64 | 328/10 | 2.03e+02 | degradation |
| U64 | 328/30 | 1.88e+01 | degradation |
| U64 | 328/60 | 4.77e+00 | degradation |
| U64 | 328/180 | 1.32e+00 | degradation |
| U64 | 315/0 | NA | degradation |
| U64 | 315/10 | NA | degradation |
| U64 | 315/30 | NA | degradation |
| U64 | 315/60 | NA | degradation |
| U64 | 315/180 | NA | degradation |
| U64 | ntc | NA | Stability |